Multiple sequence alignment - TraesCS2B01G353800

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS2B01G353800 chr2B 100.000 2651 0 0 1 2651 504489204 504491854 0.000000e+00 4896.0
1 TraesCS2B01G353800 chr2A 87.740 1354 67 28 550 1871 560680282 560678996 0.000000e+00 1489.0
2 TraesCS2B01G353800 chr2A 91.568 676 28 10 1 661 560681027 560680366 0.000000e+00 905.0
3 TraesCS2B01G353800 chr2A 85.507 345 35 9 2286 2616 560679003 560678660 1.950000e-91 346.0
4 TraesCS2B01G353800 chr2A 100.000 28 0 0 561 588 560680427 560680400 5.000000e-03 52.8
5 TraesCS2B01G353800 chr2D 92.360 1034 49 19 867 1875 427617394 427618422 0.000000e+00 1445.0
6 TraesCS2B01G353800 chr2D 92.665 668 30 6 1 661 427615988 427616643 0.000000e+00 944.0
7 TraesCS2B01G353800 chr2D 96.389 360 12 1 2293 2651 427618423 427618782 2.270000e-165 592.0
8 TraesCS2B01G353800 chr2D 87.413 429 39 9 1869 2284 641973178 641973604 1.850000e-131 479.0
9 TraesCS2B01G353800 chr2D 87.150 428 41 9 1869 2284 597960658 597961083 8.590000e-130 473.0
10 TraesCS2B01G353800 chr2D 87.204 422 44 6 1872 2284 455892929 455893349 3.090000e-129 472.0
11 TraesCS2B01G353800 chr2D 86.005 443 47 10 1855 2284 430523160 430522720 6.690000e-126 460.0
12 TraesCS2B01G353800 chr2D 87.307 323 15 6 550 872 427616699 427616995 1.950000e-91 346.0
13 TraesCS2B01G353800 chr1D 88.278 418 40 6 1872 2284 442055381 442055794 2.370000e-135 492.0
14 TraesCS2B01G353800 chr3A 87.500 424 46 4 1870 2286 1934423 1934000 1.430000e-132 483.0
15 TraesCS2B01G353800 chr5D 87.324 426 40 9 1872 2284 389527151 389527575 2.390000e-130 475.0
16 TraesCS2B01G353800 chr7D 86.499 437 51 6 1864 2293 53626025 53625590 8.590000e-130 473.0
17 TraesCS2B01G353800 chr4A 87.294 425 41 8 1872 2284 13062408 13061985 8.590000e-130 473.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2B01G353800 chr2B 504489204 504491854 2650 False 4896.00 4896 100.00000 1 2651 1 chr2B.!!$F1 2650
1 TraesCS2B01G353800 chr2A 560678660 560681027 2367 True 698.20 1489 91.20375 1 2616 4 chr2A.!!$R1 2615
2 TraesCS2B01G353800 chr2D 427615988 427618782 2794 False 831.75 1445 92.18025 1 2651 4 chr2D.!!$F4 2650

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
862 1058 0.249447 CTCCTGCCATGACGCGATAA 60.249 55.0 15.93 0.0 0.0 1.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1880 2514 0.243365 GCGCACCCATGTTCATCAAA 59.757 50.0 0.3 0.0 0.0 2.69 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
402 409 3.210528 GAGGGCGACGACGAGGAT 61.211 66.667 12.29 0.00 42.66 3.24
403 410 3.471244 GAGGGCGACGACGAGGATG 62.471 68.421 12.29 0.00 42.66 3.51
404 411 3.515286 GGGCGACGACGAGGATGA 61.515 66.667 12.29 0.00 42.66 2.92
405 412 2.024871 GGCGACGACGAGGATGAG 59.975 66.667 12.29 0.00 42.66 2.90
406 413 2.024871 GCGACGACGAGGATGAGG 59.975 66.667 12.29 0.00 42.66 3.86
407 414 2.470362 GCGACGACGAGGATGAGGA 61.470 63.158 12.29 0.00 42.66 3.71
408 415 1.352404 CGACGACGAGGATGAGGAC 59.648 63.158 0.00 0.00 42.66 3.85
409 416 1.352404 GACGACGAGGATGAGGACG 59.648 63.158 0.00 0.00 0.00 4.79
410 417 1.078637 ACGACGAGGATGAGGACGA 60.079 57.895 0.00 0.00 0.00 4.20
411 418 1.090625 ACGACGAGGATGAGGACGAG 61.091 60.000 0.00 0.00 0.00 4.18
452 459 1.403814 GAGATGGAGGTGGACGATCA 58.596 55.000 0.00 0.00 0.00 2.92
454 461 0.249657 GATGGAGGTGGACGATCAGC 60.250 60.000 0.00 0.00 35.58 4.26
455 462 1.690219 ATGGAGGTGGACGATCAGCC 61.690 60.000 0.00 0.00 35.93 4.85
456 463 2.359169 GGAGGTGGACGATCAGCCA 61.359 63.158 0.00 0.00 35.93 4.75
459 466 2.581354 GTGGACGATCAGCCAGCT 59.419 61.111 3.89 0.00 34.22 4.24
568 583 1.003118 AGATGCTGCGAGTTTGGGTTA 59.997 47.619 0.00 0.00 0.00 2.85
609 624 7.765307 TGAACATTATCTGAAGCCTGAATTTC 58.235 34.615 0.00 0.00 0.00 2.17
616 763 4.695455 TCTGAAGCCTGAATTTCGGTTAAG 59.305 41.667 4.58 0.63 32.70 1.85
620 767 4.589908 AGCCTGAATTTCGGTTAAGATGT 58.410 39.130 4.58 0.00 0.00 3.06
624 771 5.106157 CCTGAATTTCGGTTAAGATGTTGCT 60.106 40.000 4.58 0.00 0.00 3.91
668 864 3.000376 GCGAATTCGGGTTAGTAGAAACG 60.000 47.826 27.78 0.00 40.23 3.60
669 865 4.414852 CGAATTCGGGTTAGTAGAAACGA 58.585 43.478 20.16 0.00 33.38 3.85
685 881 5.238583 AGAAACGAAAGCTGCAGTAGTAAT 58.761 37.500 16.64 0.00 0.00 1.89
732 928 4.832248 TCTGAAGCCTGAACATTATCGTT 58.168 39.130 0.00 0.00 0.00 3.85
736 932 4.408182 AGCCTGAACATTATCGTTAGCT 57.592 40.909 0.00 0.00 0.00 3.32
861 1057 1.106944 TCTCCTGCCATGACGCGATA 61.107 55.000 15.93 0.02 0.00 2.92
862 1058 0.249447 CTCCTGCCATGACGCGATAA 60.249 55.000 15.93 0.00 0.00 1.75
886 1486 4.122337 TCTCTATAAATACAGCCCCCGA 57.878 45.455 0.00 0.00 0.00 5.14
939 1539 1.724545 TCGAAACCTTCTTCTCCCCA 58.275 50.000 0.00 0.00 0.00 4.96
960 1560 2.698274 ACAAATCCAACCAACCAACCTC 59.302 45.455 0.00 0.00 0.00 3.85
993 1593 0.326595 TAAGCAGATTCCGTGGGCAA 59.673 50.000 0.00 0.00 0.00 4.52
1491 2091 1.079819 CGAGGCGAACATGGACTGT 60.080 57.895 0.00 0.00 40.84 3.55
1714 2338 6.716628 AGAATTGCAGAAACCAGTAGAATCAA 59.283 34.615 0.00 0.00 0.00 2.57
1731 2356 3.247563 TCAAACGATTTGACGACAAGC 57.752 42.857 0.00 0.00 44.21 4.01
1821 2454 2.036958 TGGACCAGATAAATGCCACG 57.963 50.000 0.00 0.00 0.00 4.94
1862 2496 6.658816 TGTAGTGATTCAATACCAAATGTGCT 59.341 34.615 18.59 0.00 34.57 4.40
1876 2510 1.438651 TGTGCTCAACATAAGGACGC 58.561 50.000 0.00 0.00 37.85 5.19
1877 2511 1.270571 TGTGCTCAACATAAGGACGCA 60.271 47.619 0.00 0.00 37.85 5.24
1878 2512 1.394917 GTGCTCAACATAAGGACGCAG 59.605 52.381 0.00 0.00 0.00 5.18
1879 2513 1.275010 TGCTCAACATAAGGACGCAGA 59.725 47.619 0.00 0.00 0.00 4.26
1880 2514 2.093500 TGCTCAACATAAGGACGCAGAT 60.093 45.455 0.00 0.00 0.00 2.90
1881 2515 2.939103 GCTCAACATAAGGACGCAGATT 59.061 45.455 0.00 0.00 0.00 2.40
1882 2516 3.375299 GCTCAACATAAGGACGCAGATTT 59.625 43.478 0.00 0.00 0.00 2.17
1883 2517 4.728882 GCTCAACATAAGGACGCAGATTTG 60.729 45.833 0.00 0.00 0.00 2.32
1884 2518 4.574892 TCAACATAAGGACGCAGATTTGA 58.425 39.130 0.00 0.00 0.00 2.69
1885 2519 5.185454 TCAACATAAGGACGCAGATTTGAT 58.815 37.500 0.00 0.00 0.00 2.57
1886 2520 5.065090 TCAACATAAGGACGCAGATTTGATG 59.935 40.000 0.00 0.00 0.00 3.07
1887 2521 4.769688 ACATAAGGACGCAGATTTGATGA 58.230 39.130 0.00 0.00 0.00 2.92
1888 2522 5.185454 ACATAAGGACGCAGATTTGATGAA 58.815 37.500 0.00 0.00 0.00 2.57
1889 2523 5.065218 ACATAAGGACGCAGATTTGATGAAC 59.935 40.000 0.00 0.00 0.00 3.18
1890 2524 3.057969 AGGACGCAGATTTGATGAACA 57.942 42.857 0.00 0.00 0.00 3.18
1891 2525 3.614092 AGGACGCAGATTTGATGAACAT 58.386 40.909 0.00 0.00 0.00 2.71
1892 2526 3.376234 AGGACGCAGATTTGATGAACATG 59.624 43.478 0.00 0.00 0.00 3.21
1893 2527 3.488047 GGACGCAGATTTGATGAACATGG 60.488 47.826 0.00 0.00 0.00 3.66
1894 2528 2.424601 ACGCAGATTTGATGAACATGGG 59.575 45.455 0.00 0.00 0.00 4.00
1895 2529 2.424601 CGCAGATTTGATGAACATGGGT 59.575 45.455 0.00 0.00 0.00 4.51
1896 2530 3.732774 CGCAGATTTGATGAACATGGGTG 60.733 47.826 0.00 0.00 0.00 4.61
1897 2531 3.777478 CAGATTTGATGAACATGGGTGC 58.223 45.455 0.00 0.00 0.00 5.01
1898 2532 2.424601 AGATTTGATGAACATGGGTGCG 59.575 45.455 0.00 0.00 0.00 5.34
1899 2533 0.243365 TTTGATGAACATGGGTGCGC 59.757 50.000 0.00 0.00 0.00 6.09
1900 2534 0.892814 TTGATGAACATGGGTGCGCA 60.893 50.000 5.66 5.66 0.00 6.09
1901 2535 1.137404 GATGAACATGGGTGCGCAC 59.863 57.895 32.15 32.15 0.00 5.34
1902 2536 1.585267 GATGAACATGGGTGCGCACA 61.585 55.000 38.60 22.46 0.00 4.57
1903 2537 1.865788 ATGAACATGGGTGCGCACAC 61.866 55.000 38.60 37.07 46.66 3.82
1919 2553 8.560576 GTGCGCACACATCTTTTATAAATATT 57.439 30.769 34.52 0.00 46.61 1.28
1920 2554 9.658475 GTGCGCACACATCTTTTATAAATATTA 57.342 29.630 34.52 0.00 46.61 0.98
1991 2625 7.900782 ATACATAGTGAACCGGTATATTTGC 57.099 36.000 8.00 0.00 0.00 3.68
1992 2626 5.676552 ACATAGTGAACCGGTATATTTGCA 58.323 37.500 8.00 0.00 0.00 4.08
1993 2627 6.296026 ACATAGTGAACCGGTATATTTGCAT 58.704 36.000 8.00 0.00 0.00 3.96
1994 2628 7.446769 ACATAGTGAACCGGTATATTTGCATA 58.553 34.615 8.00 0.00 0.00 3.14
1995 2629 8.100791 ACATAGTGAACCGGTATATTTGCATAT 58.899 33.333 8.00 0.00 0.00 1.78
1996 2630 9.594478 CATAGTGAACCGGTATATTTGCATATA 57.406 33.333 8.00 0.00 0.00 0.86
1998 2632 8.911918 AGTGAACCGGTATATTTGCATATAAA 57.088 30.769 8.00 0.00 30.88 1.40
1999 2633 8.999431 AGTGAACCGGTATATTTGCATATAAAG 58.001 33.333 8.00 0.00 30.88 1.85
2000 2634 8.780249 GTGAACCGGTATATTTGCATATAAAGT 58.220 33.333 8.00 0.00 30.88 2.66
2001 2635 9.344772 TGAACCGGTATATTTGCATATAAAGTT 57.655 29.630 8.00 1.92 30.88 2.66
2004 2638 9.344772 ACCGGTATATTTGCATATAAAGTTTCA 57.655 29.630 4.49 0.00 30.88 2.69
2005 2639 9.607285 CCGGTATATTTGCATATAAAGTTTCAC 57.393 33.333 0.78 0.00 30.88 3.18
2006 2640 9.313323 CGGTATATTTGCATATAAAGTTTCACG 57.687 33.333 0.78 0.00 30.88 4.35
2012 2646 9.906660 ATTTGCATATAAAGTTTCACGAAGAAA 57.093 25.926 0.00 0.00 43.71 2.52
2024 2658 6.908870 TTCACGAAGAAATCACATCTATGG 57.091 37.500 0.00 0.00 32.05 2.74
2025 2659 4.811024 TCACGAAGAAATCACATCTATGGC 59.189 41.667 0.00 0.00 0.00 4.40
2026 2660 4.571984 CACGAAGAAATCACATCTATGGCA 59.428 41.667 0.00 0.00 0.00 4.92
2027 2661 5.065090 CACGAAGAAATCACATCTATGGCAA 59.935 40.000 0.00 0.00 0.00 4.52
2028 2662 5.824624 ACGAAGAAATCACATCTATGGCAAT 59.175 36.000 0.00 0.00 0.00 3.56
2029 2663 6.017605 ACGAAGAAATCACATCTATGGCAATC 60.018 38.462 0.00 0.00 0.00 2.67
2030 2664 6.204301 CGAAGAAATCACATCTATGGCAATCT 59.796 38.462 0.00 0.00 0.00 2.40
2031 2665 6.879276 AGAAATCACATCTATGGCAATCTG 57.121 37.500 0.00 0.00 0.00 2.90
2032 2666 5.768662 AGAAATCACATCTATGGCAATCTGG 59.231 40.000 0.00 0.00 0.00 3.86
2033 2667 4.987963 ATCACATCTATGGCAATCTGGA 57.012 40.909 0.00 0.00 0.00 3.86
2034 2668 4.077300 TCACATCTATGGCAATCTGGAC 57.923 45.455 0.00 0.00 0.00 4.02
2035 2669 3.455543 TCACATCTATGGCAATCTGGACA 59.544 43.478 0.00 0.00 0.00 4.02
2036 2670 4.080413 TCACATCTATGGCAATCTGGACAA 60.080 41.667 0.00 0.00 0.00 3.18
2037 2671 4.641541 CACATCTATGGCAATCTGGACAAA 59.358 41.667 0.00 0.00 0.00 2.83
2038 2672 5.125900 CACATCTATGGCAATCTGGACAAAA 59.874 40.000 0.00 0.00 0.00 2.44
2039 2673 5.716228 ACATCTATGGCAATCTGGACAAAAA 59.284 36.000 0.00 0.00 0.00 1.94
2040 2674 6.381994 ACATCTATGGCAATCTGGACAAAAAT 59.618 34.615 0.00 0.00 0.00 1.82
2041 2675 6.211587 TCTATGGCAATCTGGACAAAAATG 57.788 37.500 0.00 0.00 0.00 2.32
2042 2676 5.951148 TCTATGGCAATCTGGACAAAAATGA 59.049 36.000 0.00 0.00 0.00 2.57
2043 2677 4.255833 TGGCAATCTGGACAAAAATGAC 57.744 40.909 0.00 0.00 0.00 3.06
2044 2678 3.640498 TGGCAATCTGGACAAAAATGACA 59.360 39.130 0.00 0.00 0.00 3.58
2045 2679 4.100653 TGGCAATCTGGACAAAAATGACAA 59.899 37.500 0.00 0.00 0.00 3.18
2046 2680 5.055812 GGCAATCTGGACAAAAATGACAAA 58.944 37.500 0.00 0.00 0.00 2.83
2047 2681 5.178067 GGCAATCTGGACAAAAATGACAAAG 59.822 40.000 0.00 0.00 0.00 2.77
2048 2682 5.754890 GCAATCTGGACAAAAATGACAAAGT 59.245 36.000 0.00 0.00 0.00 2.66
2049 2683 6.074142 GCAATCTGGACAAAAATGACAAAGTC 60.074 38.462 0.00 0.00 0.00 3.01
2050 2684 5.168526 TCTGGACAAAAATGACAAAGTCG 57.831 39.130 0.00 0.00 34.95 4.18
2051 2685 4.878971 TCTGGACAAAAATGACAAAGTCGA 59.121 37.500 0.00 0.00 34.95 4.20
2052 2686 5.355630 TCTGGACAAAAATGACAAAGTCGAA 59.644 36.000 0.00 0.00 34.95 3.71
2053 2687 5.577835 TGGACAAAAATGACAAAGTCGAAG 58.422 37.500 0.00 0.00 34.95 3.79
2054 2688 4.441087 GGACAAAAATGACAAAGTCGAAGC 59.559 41.667 0.00 0.00 34.95 3.86
2055 2689 5.248870 ACAAAAATGACAAAGTCGAAGCT 57.751 34.783 0.00 0.00 34.95 3.74
2056 2690 6.371809 ACAAAAATGACAAAGTCGAAGCTA 57.628 33.333 0.00 0.00 34.95 3.32
2057 2691 6.791303 ACAAAAATGACAAAGTCGAAGCTAA 58.209 32.000 0.00 0.00 34.95 3.09
2058 2692 6.691388 ACAAAAATGACAAAGTCGAAGCTAAC 59.309 34.615 0.00 0.00 34.95 2.34
2059 2693 5.358298 AAATGACAAAGTCGAAGCTAACC 57.642 39.130 0.00 0.00 34.95 2.85
2060 2694 2.400399 TGACAAAGTCGAAGCTAACCG 58.600 47.619 0.00 0.00 34.95 4.44
2061 2695 2.034939 TGACAAAGTCGAAGCTAACCGA 59.965 45.455 2.25 2.25 34.95 4.69
2062 2696 3.054878 GACAAAGTCGAAGCTAACCGAA 58.945 45.455 7.25 0.00 36.50 4.30
2063 2697 3.057734 ACAAAGTCGAAGCTAACCGAAG 58.942 45.455 7.25 2.52 36.50 3.79
2064 2698 1.711206 AAGTCGAAGCTAACCGAAGC 58.289 50.000 7.25 0.00 43.11 3.86
2098 2732 6.721571 AACACTGTTTAATGAGTATGGTCG 57.278 37.500 0.00 0.00 0.00 4.79
2099 2733 4.630069 ACACTGTTTAATGAGTATGGTCGC 59.370 41.667 0.00 0.00 0.00 5.19
2100 2734 4.629634 CACTGTTTAATGAGTATGGTCGCA 59.370 41.667 0.00 0.00 0.00 5.10
2101 2735 5.294306 CACTGTTTAATGAGTATGGTCGCAT 59.706 40.000 0.00 0.00 0.00 4.73
2102 2736 5.880332 ACTGTTTAATGAGTATGGTCGCATT 59.120 36.000 0.00 0.00 40.01 3.56
2103 2737 6.374333 ACTGTTTAATGAGTATGGTCGCATTT 59.626 34.615 0.00 0.00 38.40 2.32
2104 2738 7.551262 ACTGTTTAATGAGTATGGTCGCATTTA 59.449 33.333 0.00 0.00 38.40 1.40
2105 2739 8.445275 TGTTTAATGAGTATGGTCGCATTTAT 57.555 30.769 0.00 0.00 38.40 1.40
2106 2740 9.549078 TGTTTAATGAGTATGGTCGCATTTATA 57.451 29.630 0.00 0.00 38.40 0.98
2112 2746 8.902540 TGAGTATGGTCGCATTTATATTTTCT 57.097 30.769 0.00 0.00 0.00 2.52
2113 2747 9.337396 TGAGTATGGTCGCATTTATATTTTCTT 57.663 29.630 0.00 0.00 0.00 2.52
2114 2748 9.813080 GAGTATGGTCGCATTTATATTTTCTTC 57.187 33.333 0.00 0.00 0.00 2.87
2115 2749 9.337396 AGTATGGTCGCATTTATATTTTCTTCA 57.663 29.630 0.00 0.00 0.00 3.02
2116 2750 9.382244 GTATGGTCGCATTTATATTTTCTTCAC 57.618 33.333 0.00 0.00 0.00 3.18
2117 2751 7.624360 TGGTCGCATTTATATTTTCTTCACT 57.376 32.000 0.00 0.00 0.00 3.41
2118 2752 8.725405 TGGTCGCATTTATATTTTCTTCACTA 57.275 30.769 0.00 0.00 0.00 2.74
2119 2753 9.168451 TGGTCGCATTTATATTTTCTTCACTAA 57.832 29.630 0.00 0.00 0.00 2.24
2120 2754 9.651718 GGTCGCATTTATATTTTCTTCACTAAG 57.348 33.333 0.00 0.00 0.00 2.18
2132 2766 6.636454 TTCTTCACTAAGAATACCATGGGT 57.364 37.500 18.09 4.30 44.85 4.51
2133 2767 5.989477 TCTTCACTAAGAATACCATGGGTG 58.011 41.667 18.09 11.64 38.81 4.61
2134 2768 5.487488 TCTTCACTAAGAATACCATGGGTGT 59.513 40.000 18.09 0.00 38.81 4.16
2135 2769 5.353394 TCACTAAGAATACCATGGGTGTC 57.647 43.478 18.09 9.62 36.19 3.67
2136 2770 4.780554 TCACTAAGAATACCATGGGTGTCA 59.219 41.667 18.09 0.00 36.19 3.58
2137 2771 5.249622 TCACTAAGAATACCATGGGTGTCAA 59.750 40.000 18.09 1.84 36.19 3.18
2138 2772 6.069673 TCACTAAGAATACCATGGGTGTCAAT 60.070 38.462 18.09 5.69 36.19 2.57
2139 2773 7.126573 TCACTAAGAATACCATGGGTGTCAATA 59.873 37.037 18.09 0.00 36.19 1.90
2140 2774 7.226720 CACTAAGAATACCATGGGTGTCAATAC 59.773 40.741 18.09 0.00 36.19 1.89
2141 2775 5.708736 AGAATACCATGGGTGTCAATACA 57.291 39.130 18.09 0.00 36.19 2.29
2142 2776 6.266131 AGAATACCATGGGTGTCAATACAT 57.734 37.500 18.09 0.00 38.08 2.29
2143 2777 6.672593 AGAATACCATGGGTGTCAATACATT 58.327 36.000 18.09 0.00 38.08 2.71
2144 2778 7.811282 AGAATACCATGGGTGTCAATACATTA 58.189 34.615 18.09 0.00 38.08 1.90
2145 2779 8.448008 AGAATACCATGGGTGTCAATACATTAT 58.552 33.333 18.09 0.00 38.08 1.28
2146 2780 8.408043 AATACCATGGGTGTCAATACATTATG 57.592 34.615 18.09 0.00 38.08 1.90
2147 2781 6.012337 ACCATGGGTGTCAATACATTATGA 57.988 37.500 18.09 0.00 38.08 2.15
2148 2782 6.430864 ACCATGGGTGTCAATACATTATGAA 58.569 36.000 18.09 0.00 38.08 2.57
2149 2783 6.894654 ACCATGGGTGTCAATACATTATGAAA 59.105 34.615 18.09 0.00 38.08 2.69
2150 2784 7.147915 ACCATGGGTGTCAATACATTATGAAAC 60.148 37.037 18.09 0.00 38.08 2.78
2151 2785 7.068593 CCATGGGTGTCAATACATTATGAAACT 59.931 37.037 2.85 0.00 38.08 2.66
2152 2786 8.469200 CATGGGTGTCAATACATTATGAAACTT 58.531 33.333 0.00 0.00 38.08 2.66
2153 2787 8.050778 TGGGTGTCAATACATTATGAAACTTC 57.949 34.615 0.00 0.00 38.08 3.01
2154 2788 7.667635 TGGGTGTCAATACATTATGAAACTTCA 59.332 33.333 0.00 0.00 38.67 3.02
2155 2789 7.968405 GGGTGTCAATACATTATGAAACTTCAC 59.032 37.037 0.00 2.19 37.76 3.18
2156 2790 8.511321 GGTGTCAATACATTATGAAACTTCACA 58.489 33.333 0.00 0.00 37.76 3.58
2163 2797 7.750229 ACATTATGAAACTTCACATGTGAGT 57.250 32.000 26.48 22.26 40.35 3.41
2164 2798 8.846943 ACATTATGAAACTTCACATGTGAGTA 57.153 30.769 26.48 13.71 40.35 2.59
2165 2799 8.939929 ACATTATGAAACTTCACATGTGAGTAG 58.060 33.333 26.48 23.47 40.35 2.57
2166 2800 9.154847 CATTATGAAACTTCACATGTGAGTAGA 57.845 33.333 26.84 14.37 41.13 2.59
2167 2801 9.725019 ATTATGAAACTTCACATGTGAGTAGAA 57.275 29.630 26.84 14.05 41.13 2.10
2168 2802 9.725019 TTATGAAACTTCACATGTGAGTAGAAT 57.275 29.630 26.84 19.48 41.13 2.40
2169 2803 7.425577 TGAAACTTCACATGTGAGTAGAATG 57.574 36.000 26.84 15.67 41.13 2.67
2170 2804 7.216494 TGAAACTTCACATGTGAGTAGAATGA 58.784 34.615 26.84 12.15 41.13 2.57
2171 2805 7.879677 TGAAACTTCACATGTGAGTAGAATGAT 59.120 33.333 26.84 12.14 41.13 2.45
2172 2806 7.840342 AACTTCACATGTGAGTAGAATGATC 57.160 36.000 26.84 0.00 41.13 2.92
2173 2807 6.939622 ACTTCACATGTGAGTAGAATGATCA 58.060 36.000 26.84 10.46 41.13 2.92
2174 2808 7.389232 ACTTCACATGTGAGTAGAATGATCAA 58.611 34.615 26.84 10.29 41.13 2.57
2175 2809 7.332926 ACTTCACATGTGAGTAGAATGATCAAC 59.667 37.037 26.84 0.00 41.13 3.18
2176 2810 6.939622 TCACATGTGAGTAGAATGATCAACT 58.060 36.000 24.56 5.25 34.14 3.16
2177 2811 8.066612 TCACATGTGAGTAGAATGATCAACTA 57.933 34.615 24.56 4.20 34.14 2.24
2178 2812 8.531146 TCACATGTGAGTAGAATGATCAACTAA 58.469 33.333 24.56 0.00 34.14 2.24
2179 2813 8.815189 CACATGTGAGTAGAATGATCAACTAAG 58.185 37.037 21.64 0.00 0.00 2.18
2180 2814 7.984050 ACATGTGAGTAGAATGATCAACTAAGG 59.016 37.037 0.00 0.00 0.00 2.69
2181 2815 7.482169 TGTGAGTAGAATGATCAACTAAGGT 57.518 36.000 0.00 0.00 0.00 3.50
2182 2816 7.907389 TGTGAGTAGAATGATCAACTAAGGTT 58.093 34.615 0.00 0.00 35.86 3.50
2183 2817 8.035394 TGTGAGTAGAATGATCAACTAAGGTTC 58.965 37.037 0.00 0.00 32.73 3.62
2184 2818 8.035394 GTGAGTAGAATGATCAACTAAGGTTCA 58.965 37.037 0.00 6.70 32.73 3.18
2185 2819 8.762645 TGAGTAGAATGATCAACTAAGGTTCAT 58.237 33.333 0.00 0.00 32.73 2.57
2189 2823 8.954950 AGAATGATCAACTAAGGTTCATACTG 57.045 34.615 0.00 0.00 32.73 2.74
2190 2824 7.497249 AGAATGATCAACTAAGGTTCATACTGC 59.503 37.037 0.00 0.00 32.73 4.40
2191 2825 5.109210 TGATCAACTAAGGTTCATACTGCG 58.891 41.667 0.00 0.00 32.73 5.18
2192 2826 4.794278 TCAACTAAGGTTCATACTGCGA 57.206 40.909 0.00 0.00 32.73 5.10
2193 2827 5.142061 TCAACTAAGGTTCATACTGCGAA 57.858 39.130 0.00 0.00 32.73 4.70
2194 2828 5.543714 TCAACTAAGGTTCATACTGCGAAA 58.456 37.500 0.00 0.00 32.73 3.46
2195 2829 6.170506 TCAACTAAGGTTCATACTGCGAAAT 58.829 36.000 0.00 0.00 32.73 2.17
2196 2830 6.653320 TCAACTAAGGTTCATACTGCGAAATT 59.347 34.615 0.00 0.00 32.73 1.82
2197 2831 7.174253 TCAACTAAGGTTCATACTGCGAAATTT 59.826 33.333 0.00 0.00 32.73 1.82
2198 2832 7.073342 ACTAAGGTTCATACTGCGAAATTTC 57.927 36.000 8.20 8.20 0.00 2.17
2199 2833 5.957842 AAGGTTCATACTGCGAAATTTCA 57.042 34.783 17.99 0.00 0.00 2.69
2200 2834 5.551760 AGGTTCATACTGCGAAATTTCAG 57.448 39.130 17.99 11.45 36.45 3.02
2201 2835 5.245531 AGGTTCATACTGCGAAATTTCAGA 58.754 37.500 17.99 2.79 34.57 3.27
2202 2836 5.705441 AGGTTCATACTGCGAAATTTCAGAA 59.295 36.000 17.99 5.00 34.57 3.02
2203 2837 6.375455 AGGTTCATACTGCGAAATTTCAGAAT 59.625 34.615 17.99 3.53 34.57 2.40
2204 2838 7.029563 GGTTCATACTGCGAAATTTCAGAATT 58.970 34.615 17.99 3.23 37.06 2.17
2205 2839 7.542130 GGTTCATACTGCGAAATTTCAGAATTT 59.458 33.333 17.99 0.00 45.62 1.82
2206 2840 8.915654 GTTCATACTGCGAAATTTCAGAATTTT 58.084 29.630 17.99 3.19 43.61 1.82
2207 2841 9.474920 TTCATACTGCGAAATTTCAGAATTTTT 57.525 25.926 17.99 0.00 43.61 1.94
2271 2905 3.499737 CGCGCACCCAGGTTCATC 61.500 66.667 8.75 0.00 0.00 2.92
2272 2906 2.045926 GCGCACCCAGGTTCATCT 60.046 61.111 0.30 0.00 0.00 2.90
2273 2907 1.675641 GCGCACCCAGGTTCATCTT 60.676 57.895 0.30 0.00 0.00 2.40
2274 2908 1.244019 GCGCACCCAGGTTCATCTTT 61.244 55.000 0.30 0.00 0.00 2.52
2275 2909 0.523072 CGCACCCAGGTTCATCTTTG 59.477 55.000 0.00 0.00 0.00 2.77
2276 2910 1.620822 GCACCCAGGTTCATCTTTGT 58.379 50.000 0.00 0.00 0.00 2.83
2277 2911 2.790433 GCACCCAGGTTCATCTTTGTA 58.210 47.619 0.00 0.00 0.00 2.41
2278 2912 3.356290 GCACCCAGGTTCATCTTTGTAT 58.644 45.455 0.00 0.00 0.00 2.29
2279 2913 3.763897 GCACCCAGGTTCATCTTTGTATT 59.236 43.478 0.00 0.00 0.00 1.89
2280 2914 4.220602 GCACCCAGGTTCATCTTTGTATTT 59.779 41.667 0.00 0.00 0.00 1.40
2281 2915 5.279456 GCACCCAGGTTCATCTTTGTATTTT 60.279 40.000 0.00 0.00 0.00 1.82
2282 2916 6.389906 CACCCAGGTTCATCTTTGTATTTTC 58.610 40.000 0.00 0.00 0.00 2.29
2283 2917 5.183140 ACCCAGGTTCATCTTTGTATTTTCG 59.817 40.000 0.00 0.00 0.00 3.46
2284 2918 5.183140 CCCAGGTTCATCTTTGTATTTTCGT 59.817 40.000 0.00 0.00 0.00 3.85
2319 2953 8.211030 TGTTAATATCCTCATGGACATCAGAT 57.789 34.615 0.00 0.00 46.51 2.90
2381 3028 2.094026 GGGGTGTGATGGAAAAGAATGC 60.094 50.000 0.00 0.00 0.00 3.56
2383 3030 3.259123 GGGTGTGATGGAAAAGAATGCTT 59.741 43.478 0.00 0.00 35.37 3.91
2419 3066 0.396974 AAGAGGGTTGGCAGTTGCAA 60.397 50.000 6.43 0.00 44.36 4.08
2465 3112 7.857569 TGCACTACATGTTTTTGTACTTCTAC 58.142 34.615 2.30 0.00 0.00 2.59
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
147 148 3.299977 TCGTAGCGCACCCACAGT 61.300 61.111 11.47 0.00 0.00 3.55
261 262 0.250234 TGAGGCGGAACTCCTTCATG 59.750 55.000 0.00 0.00 43.53 3.07
393 400 1.644372 CTCGTCCTCATCCTCGTCG 59.356 63.158 0.00 0.00 0.00 5.12
400 407 0.464013 TCCTCGTCCTCGTCCTCATC 60.464 60.000 0.00 0.00 38.33 2.92
401 408 0.183971 ATCCTCGTCCTCGTCCTCAT 59.816 55.000 0.00 0.00 38.33 2.90
402 409 0.748367 CATCCTCGTCCTCGTCCTCA 60.748 60.000 0.00 0.00 38.33 3.86
403 410 0.464013 TCATCCTCGTCCTCGTCCTC 60.464 60.000 0.00 0.00 38.33 3.71
404 411 0.748729 GTCATCCTCGTCCTCGTCCT 60.749 60.000 0.00 0.00 38.33 3.85
405 412 1.728672 GTCATCCTCGTCCTCGTCC 59.271 63.158 0.00 0.00 38.33 4.79
406 413 1.088340 TCGTCATCCTCGTCCTCGTC 61.088 60.000 0.00 0.00 38.33 4.20
407 414 0.675837 TTCGTCATCCTCGTCCTCGT 60.676 55.000 0.00 0.00 38.33 4.18
408 415 0.028242 CTTCGTCATCCTCGTCCTCG 59.972 60.000 0.00 0.00 38.55 4.63
409 416 0.248702 GCTTCGTCATCCTCGTCCTC 60.249 60.000 0.00 0.00 0.00 3.71
410 417 1.810532 GCTTCGTCATCCTCGTCCT 59.189 57.895 0.00 0.00 0.00 3.85
411 418 1.586564 CGCTTCGTCATCCTCGTCC 60.587 63.158 0.00 0.00 0.00 4.79
559 574 4.439289 GCTTCAGATCATGCTAACCCAAAC 60.439 45.833 0.00 0.00 0.00 2.93
568 583 2.026542 TGTTCAGGCTTCAGATCATGCT 60.027 45.455 0.00 0.00 0.00 3.79
609 624 0.096976 CCGCAGCAACATCTTAACCG 59.903 55.000 0.00 0.00 0.00 4.44
616 763 0.179129 CCCAAATCCGCAGCAACATC 60.179 55.000 0.00 0.00 0.00 3.06
620 767 1.173043 CTAACCCAAATCCGCAGCAA 58.827 50.000 0.00 0.00 0.00 3.91
624 771 1.102154 CATGCTAACCCAAATCCGCA 58.898 50.000 0.00 0.00 0.00 5.69
653 849 3.367025 CAGCTTTCGTTTCTACTAACCCG 59.633 47.826 0.00 0.00 0.00 5.28
668 864 6.255887 ACATACGAATTACTACTGCAGCTTTC 59.744 38.462 15.27 7.15 0.00 2.62
669 865 6.106673 ACATACGAATTACTACTGCAGCTTT 58.893 36.000 15.27 0.00 0.00 3.51
685 881 6.345298 TCATGCTTAAATCCAGACATACGAA 58.655 36.000 0.00 0.00 0.00 3.85
703 899 2.026542 TGTTCAGGCTTCAGATCATGCT 60.027 45.455 0.00 0.00 0.00 3.79
732 928 2.401583 ATCAATGGAACGCACAGCTA 57.598 45.000 0.00 0.00 0.00 3.32
777 973 2.158623 TCAGATTGACACCAGTTTGGCT 60.159 45.455 0.00 0.00 42.67 4.75
778 974 2.229792 TCAGATTGACACCAGTTTGGC 58.770 47.619 0.00 0.00 42.67 4.52
779 975 4.916983 TTTCAGATTGACACCAGTTTGG 57.083 40.909 0.00 0.00 45.02 3.28
780 976 6.323203 AGATTTCAGATTGACACCAGTTTG 57.677 37.500 0.00 0.00 0.00 2.93
781 977 5.474876 GGAGATTTCAGATTGACACCAGTTT 59.525 40.000 0.00 0.00 0.00 2.66
861 1057 5.280011 CGGGGGCTGTATTTATAGAGATGTT 60.280 44.000 0.00 0.00 0.00 2.71
862 1058 4.223032 CGGGGGCTGTATTTATAGAGATGT 59.777 45.833 0.00 0.00 0.00 3.06
886 1486 2.187958 TGTGACGGGAGATTCAGGATT 58.812 47.619 0.00 0.00 0.00 3.01
939 1539 2.698274 GAGGTTGGTTGGTTGGATTTGT 59.302 45.455 0.00 0.00 0.00 2.83
993 1593 2.755469 GCCATTGCCATGACGGGT 60.755 61.111 0.00 0.00 34.06 5.28
1035 1635 0.317479 GTCTGAACACGTAGCCCAGT 59.683 55.000 0.00 0.00 0.00 4.00
1276 1876 3.446570 CTTCTCGGGGCCGTACGT 61.447 66.667 15.21 0.00 40.74 3.57
1491 2091 1.070786 GAAGACCTTGCGGACCACA 59.929 57.895 0.00 0.00 0.00 4.17
1658 2258 2.119484 AATCTCACGGCCGTCCCAAA 62.119 55.000 31.80 12.94 0.00 3.28
1714 2338 3.896648 ATTGCTTGTCGTCAAATCGTT 57.103 38.095 0.00 0.00 32.87 3.85
1762 2388 5.681543 GCTGCAAAACTAGTTACAACAAGAC 59.318 40.000 8.92 0.00 0.00 3.01
1821 2454 7.969536 ATCACTACATTATGTATGCCTTGTC 57.030 36.000 5.46 0.00 37.81 3.18
1862 2496 4.574892 TCAAATCTGCGTCCTTATGTTGA 58.425 39.130 0.00 0.00 0.00 3.18
1875 2509 3.777478 CACCCATGTTCATCAAATCTGC 58.223 45.455 0.00 0.00 0.00 4.26
1876 2510 3.732774 CGCACCCATGTTCATCAAATCTG 60.733 47.826 0.00 0.00 0.00 2.90
1877 2511 2.424601 CGCACCCATGTTCATCAAATCT 59.575 45.455 0.00 0.00 0.00 2.40
1878 2512 2.801063 CGCACCCATGTTCATCAAATC 58.199 47.619 0.00 0.00 0.00 2.17
1879 2513 1.135024 GCGCACCCATGTTCATCAAAT 60.135 47.619 0.30 0.00 0.00 2.32
1880 2514 0.243365 GCGCACCCATGTTCATCAAA 59.757 50.000 0.30 0.00 0.00 2.69
1881 2515 0.892814 TGCGCACCCATGTTCATCAA 60.893 50.000 5.66 0.00 0.00 2.57
1882 2516 1.303155 TGCGCACCCATGTTCATCA 60.303 52.632 5.66 0.00 0.00 3.07
1883 2517 1.137404 GTGCGCACCCATGTTCATC 59.863 57.895 30.12 0.00 0.00 2.92
1884 2518 1.603171 TGTGCGCACCCATGTTCAT 60.603 52.632 35.72 0.00 0.00 2.57
1885 2519 2.203266 TGTGCGCACCCATGTTCA 60.203 55.556 35.72 13.59 0.00 3.18
1886 2520 1.865788 ATGTGTGCGCACCCATGTTC 61.866 55.000 32.98 16.74 44.65 3.18
1887 2521 1.865788 GATGTGTGCGCACCCATGTT 61.866 55.000 37.31 19.31 44.65 2.71
1888 2522 2.282391 ATGTGTGCGCACCCATGT 60.282 55.556 32.98 15.00 44.65 3.21
1889 2523 1.588824 AAGATGTGTGCGCACCCATG 61.589 55.000 37.31 0.00 44.65 3.66
1890 2524 0.895100 AAAGATGTGTGCGCACCCAT 60.895 50.000 33.80 33.80 44.65 4.00
1891 2525 1.106351 AAAAGATGTGTGCGCACCCA 61.106 50.000 35.72 31.67 44.65 4.51
1892 2526 0.878416 TAAAAGATGTGTGCGCACCC 59.122 50.000 35.72 26.78 44.65 4.61
1893 2527 2.919666 ATAAAAGATGTGTGCGCACC 57.080 45.000 35.72 26.31 44.65 5.01
1894 2528 8.560576 AATATTTATAAAAGATGTGTGCGCAC 57.439 30.769 33.11 33.11 45.44 5.34
1965 2599 9.595823 GCAAATATACCGGTTCACTATGTATAT 57.404 33.333 15.04 3.39 36.92 0.86
1966 2600 8.586744 TGCAAATATACCGGTTCACTATGTATA 58.413 33.333 15.04 0.56 0.00 1.47
1967 2601 7.446769 TGCAAATATACCGGTTCACTATGTAT 58.553 34.615 15.04 0.00 0.00 2.29
1968 2602 6.818233 TGCAAATATACCGGTTCACTATGTA 58.182 36.000 15.04 2.34 0.00 2.29
1969 2603 5.676552 TGCAAATATACCGGTTCACTATGT 58.323 37.500 15.04 0.00 0.00 2.29
1970 2604 6.801539 ATGCAAATATACCGGTTCACTATG 57.198 37.500 15.04 7.02 0.00 2.23
1972 2606 9.999660 TTTATATGCAAATATACCGGTTCACTA 57.000 29.630 15.04 0.00 0.00 2.74
1973 2607 8.911918 TTTATATGCAAATATACCGGTTCACT 57.088 30.769 15.04 0.00 0.00 3.41
1974 2608 8.780249 ACTTTATATGCAAATATACCGGTTCAC 58.220 33.333 15.04 0.00 0.00 3.18
1975 2609 8.911918 ACTTTATATGCAAATATACCGGTTCA 57.088 30.769 15.04 0.00 0.00 3.18
1978 2612 9.344772 TGAAACTTTATATGCAAATATACCGGT 57.655 29.630 13.98 13.98 0.00 5.28
1979 2613 9.607285 GTGAAACTTTATATGCAAATATACCGG 57.393 33.333 0.00 0.00 0.00 5.28
1980 2614 9.313323 CGTGAAACTTTATATGCAAATATACCG 57.687 33.333 0.00 0.00 31.75 4.02
1986 2620 9.906660 TTTCTTCGTGAAACTTTATATGCAAAT 57.093 25.926 0.00 0.00 39.50 2.32
1987 2621 9.906660 ATTTCTTCGTGAAACTTTATATGCAAA 57.093 25.926 0.00 0.00 46.08 3.68
1988 2622 9.554724 GATTTCTTCGTGAAACTTTATATGCAA 57.445 29.630 0.00 0.00 46.08 4.08
1989 2623 8.726068 TGATTTCTTCGTGAAACTTTATATGCA 58.274 29.630 8.09 0.00 46.08 3.96
1990 2624 9.000018 GTGATTTCTTCGTGAAACTTTATATGC 58.000 33.333 8.09 0.00 46.08 3.14
1994 2628 9.003658 AGATGTGATTTCTTCGTGAAACTTTAT 57.996 29.630 8.09 3.34 46.08 1.40
1995 2629 8.378172 AGATGTGATTTCTTCGTGAAACTTTA 57.622 30.769 8.09 0.00 46.08 1.85
1996 2630 7.264373 AGATGTGATTTCTTCGTGAAACTTT 57.736 32.000 8.09 0.00 46.08 2.66
1997 2631 6.867662 AGATGTGATTTCTTCGTGAAACTT 57.132 33.333 8.09 0.00 46.08 2.66
1998 2632 7.065085 CCATAGATGTGATTTCTTCGTGAAACT 59.935 37.037 8.09 4.11 46.08 2.66
1999 2633 7.182761 CCATAGATGTGATTTCTTCGTGAAAC 58.817 38.462 8.09 4.80 46.08 2.78
2001 2635 5.294306 GCCATAGATGTGATTTCTTCGTGAA 59.706 40.000 0.00 0.00 0.00 3.18
2002 2636 4.811024 GCCATAGATGTGATTTCTTCGTGA 59.189 41.667 0.00 0.00 0.00 4.35
2003 2637 4.571984 TGCCATAGATGTGATTTCTTCGTG 59.428 41.667 0.00 0.00 0.00 4.35
2004 2638 4.769688 TGCCATAGATGTGATTTCTTCGT 58.230 39.130 0.00 0.00 0.00 3.85
2005 2639 5.739752 TTGCCATAGATGTGATTTCTTCG 57.260 39.130 0.00 0.00 0.00 3.79
2006 2640 7.361127 CAGATTGCCATAGATGTGATTTCTTC 58.639 38.462 0.00 0.00 0.00 2.87
2007 2641 6.264744 CCAGATTGCCATAGATGTGATTTCTT 59.735 38.462 0.00 0.00 0.00 2.52
2008 2642 5.768662 CCAGATTGCCATAGATGTGATTTCT 59.231 40.000 0.00 0.00 0.00 2.52
2009 2643 5.766670 TCCAGATTGCCATAGATGTGATTTC 59.233 40.000 0.00 0.00 0.00 2.17
2010 2644 5.533903 GTCCAGATTGCCATAGATGTGATTT 59.466 40.000 0.00 0.00 0.00 2.17
2011 2645 5.068636 GTCCAGATTGCCATAGATGTGATT 58.931 41.667 0.00 0.00 0.00 2.57
2012 2646 4.103627 TGTCCAGATTGCCATAGATGTGAT 59.896 41.667 0.00 0.00 0.00 3.06
2013 2647 3.455543 TGTCCAGATTGCCATAGATGTGA 59.544 43.478 0.00 0.00 0.00 3.58
2014 2648 3.812262 TGTCCAGATTGCCATAGATGTG 58.188 45.455 0.00 0.00 0.00 3.21
2015 2649 4.508551 TTGTCCAGATTGCCATAGATGT 57.491 40.909 0.00 0.00 0.00 3.06
2016 2650 5.840243 TTTTGTCCAGATTGCCATAGATG 57.160 39.130 0.00 0.00 0.00 2.90
2017 2651 6.608405 TCATTTTTGTCCAGATTGCCATAGAT 59.392 34.615 0.00 0.00 0.00 1.98
2018 2652 5.951148 TCATTTTTGTCCAGATTGCCATAGA 59.049 36.000 0.00 0.00 0.00 1.98
2019 2653 6.038356 GTCATTTTTGTCCAGATTGCCATAG 58.962 40.000 0.00 0.00 0.00 2.23
2020 2654 5.479724 TGTCATTTTTGTCCAGATTGCCATA 59.520 36.000 0.00 0.00 0.00 2.74
2021 2655 4.283978 TGTCATTTTTGTCCAGATTGCCAT 59.716 37.500 0.00 0.00 0.00 4.40
2022 2656 3.640498 TGTCATTTTTGTCCAGATTGCCA 59.360 39.130 0.00 0.00 0.00 4.92
2023 2657 4.255833 TGTCATTTTTGTCCAGATTGCC 57.744 40.909 0.00 0.00 0.00 4.52
2024 2658 5.754890 ACTTTGTCATTTTTGTCCAGATTGC 59.245 36.000 0.00 0.00 0.00 3.56
2025 2659 6.142798 CGACTTTGTCATTTTTGTCCAGATTG 59.857 38.462 0.00 0.00 32.09 2.67
2026 2660 6.039270 TCGACTTTGTCATTTTTGTCCAGATT 59.961 34.615 0.00 0.00 32.09 2.40
2027 2661 5.530915 TCGACTTTGTCATTTTTGTCCAGAT 59.469 36.000 0.00 0.00 32.09 2.90
2028 2662 4.878971 TCGACTTTGTCATTTTTGTCCAGA 59.121 37.500 0.00 0.00 32.09 3.86
2029 2663 5.168526 TCGACTTTGTCATTTTTGTCCAG 57.831 39.130 0.00 0.00 32.09 3.86
2030 2664 5.568685 TTCGACTTTGTCATTTTTGTCCA 57.431 34.783 0.00 0.00 32.09 4.02
2031 2665 4.441087 GCTTCGACTTTGTCATTTTTGTCC 59.559 41.667 0.00 0.00 32.09 4.02
2032 2666 5.273944 AGCTTCGACTTTGTCATTTTTGTC 58.726 37.500 0.00 0.00 32.09 3.18
2033 2667 5.248870 AGCTTCGACTTTGTCATTTTTGT 57.751 34.783 0.00 0.00 32.09 2.83
2034 2668 6.142320 GGTTAGCTTCGACTTTGTCATTTTTG 59.858 38.462 0.00 0.00 32.09 2.44
2035 2669 6.206498 GGTTAGCTTCGACTTTGTCATTTTT 58.794 36.000 0.00 0.00 32.09 1.94
2036 2670 5.560183 CGGTTAGCTTCGACTTTGTCATTTT 60.560 40.000 0.00 0.00 32.09 1.82
2037 2671 4.084013 CGGTTAGCTTCGACTTTGTCATTT 60.084 41.667 0.00 0.00 32.09 2.32
2038 2672 3.432252 CGGTTAGCTTCGACTTTGTCATT 59.568 43.478 0.00 0.00 32.09 2.57
2039 2673 2.993899 CGGTTAGCTTCGACTTTGTCAT 59.006 45.455 0.00 0.00 32.09 3.06
2040 2674 2.034939 TCGGTTAGCTTCGACTTTGTCA 59.965 45.455 0.00 0.00 32.09 3.58
2041 2675 2.669364 TCGGTTAGCTTCGACTTTGTC 58.331 47.619 0.00 0.00 0.00 3.18
2042 2676 2.806608 TCGGTTAGCTTCGACTTTGT 57.193 45.000 0.00 0.00 0.00 2.83
2043 2677 2.159827 GCTTCGGTTAGCTTCGACTTTG 60.160 50.000 0.00 0.00 38.15 2.77
2044 2678 2.067013 GCTTCGGTTAGCTTCGACTTT 58.933 47.619 0.00 0.00 38.15 2.66
2045 2679 1.711206 GCTTCGGTTAGCTTCGACTT 58.289 50.000 0.00 0.00 38.15 3.01
2046 2680 3.420397 GCTTCGGTTAGCTTCGACT 57.580 52.632 0.00 0.00 38.15 4.18
2072 2706 8.073768 CGACCATACTCATTAAACAGTGTTTTT 58.926 33.333 25.35 11.61 0.00 1.94
2073 2707 7.581476 CGACCATACTCATTAAACAGTGTTTT 58.419 34.615 25.35 9.76 0.00 2.43
2074 2708 6.348213 GCGACCATACTCATTAAACAGTGTTT 60.348 38.462 23.85 23.85 0.00 2.83
2075 2709 5.121768 GCGACCATACTCATTAAACAGTGTT 59.878 40.000 1.64 1.64 0.00 3.32
2076 2710 4.630069 GCGACCATACTCATTAAACAGTGT 59.370 41.667 0.00 0.00 0.00 3.55
2077 2711 4.629634 TGCGACCATACTCATTAAACAGTG 59.370 41.667 0.00 0.00 0.00 3.66
2078 2712 4.827692 TGCGACCATACTCATTAAACAGT 58.172 39.130 0.00 0.00 0.00 3.55
2079 2713 5.991328 ATGCGACCATACTCATTAAACAG 57.009 39.130 0.00 0.00 0.00 3.16
2080 2714 6.751514 AAATGCGACCATACTCATTAAACA 57.248 33.333 0.00 0.00 0.00 2.83
2086 2720 9.507329 AGAAAATATAAATGCGACCATACTCAT 57.493 29.630 0.00 0.00 0.00 2.90
2087 2721 8.902540 AGAAAATATAAATGCGACCATACTCA 57.097 30.769 0.00 0.00 0.00 3.41
2088 2722 9.813080 GAAGAAAATATAAATGCGACCATACTC 57.187 33.333 0.00 0.00 0.00 2.59
2089 2723 9.337396 TGAAGAAAATATAAATGCGACCATACT 57.663 29.630 0.00 0.00 0.00 2.12
2090 2724 9.382244 GTGAAGAAAATATAAATGCGACCATAC 57.618 33.333 0.00 0.00 0.00 2.39
2091 2725 9.337396 AGTGAAGAAAATATAAATGCGACCATA 57.663 29.630 0.00 0.00 0.00 2.74
2092 2726 8.225603 AGTGAAGAAAATATAAATGCGACCAT 57.774 30.769 0.00 0.00 0.00 3.55
2093 2727 7.624360 AGTGAAGAAAATATAAATGCGACCA 57.376 32.000 0.00 0.00 0.00 4.02
2094 2728 9.651718 CTTAGTGAAGAAAATATAAATGCGACC 57.348 33.333 0.00 0.00 34.25 4.79
2107 2741 7.393234 CACCCATGGTATTCTTAGTGAAGAAAA 59.607 37.037 11.73 0.00 43.53 2.29
2108 2742 6.884295 CACCCATGGTATTCTTAGTGAAGAAA 59.116 38.462 11.73 0.00 43.53 2.52
2109 2743 6.012858 ACACCCATGGTATTCTTAGTGAAGAA 60.013 38.462 17.12 2.80 44.02 2.52
2110 2744 5.487488 ACACCCATGGTATTCTTAGTGAAGA 59.513 40.000 17.12 0.00 35.30 2.87
2111 2745 5.745227 ACACCCATGGTATTCTTAGTGAAG 58.255 41.667 17.12 0.00 33.70 3.02
2112 2746 5.249622 TGACACCCATGGTATTCTTAGTGAA 59.750 40.000 17.12 5.46 34.39 3.18
2113 2747 4.780554 TGACACCCATGGTATTCTTAGTGA 59.219 41.667 17.12 0.00 32.11 3.41
2114 2748 5.097742 TGACACCCATGGTATTCTTAGTG 57.902 43.478 11.73 11.15 32.11 2.74
2115 2749 5.772393 TTGACACCCATGGTATTCTTAGT 57.228 39.130 11.73 0.00 32.11 2.24
2116 2750 7.279615 TGTATTGACACCCATGGTATTCTTAG 58.720 38.462 11.73 0.00 32.11 2.18
2117 2751 7.201702 TGTATTGACACCCATGGTATTCTTA 57.798 36.000 11.73 0.00 32.11 2.10
2118 2752 6.073447 TGTATTGACACCCATGGTATTCTT 57.927 37.500 11.73 0.00 32.11 2.52
2119 2753 5.708736 TGTATTGACACCCATGGTATTCT 57.291 39.130 11.73 0.00 32.11 2.40
2120 2754 6.959639 AATGTATTGACACCCATGGTATTC 57.040 37.500 11.73 3.90 38.76 1.75
2121 2755 8.224025 TCATAATGTATTGACACCCATGGTATT 58.776 33.333 11.73 0.00 38.76 1.89
2122 2756 7.754624 TCATAATGTATTGACACCCATGGTAT 58.245 34.615 11.73 0.00 38.76 2.73
2123 2757 7.142995 TCATAATGTATTGACACCCATGGTA 57.857 36.000 11.73 0.00 38.76 3.25
2124 2758 6.012337 TCATAATGTATTGACACCCATGGT 57.988 37.500 11.73 0.00 38.76 3.55
2125 2759 6.957920 TTCATAATGTATTGACACCCATGG 57.042 37.500 4.14 4.14 38.76 3.66
2126 2760 7.999679 AGTTTCATAATGTATTGACACCCATG 58.000 34.615 0.00 0.00 38.76 3.66
2127 2761 8.593945 AAGTTTCATAATGTATTGACACCCAT 57.406 30.769 0.00 0.00 38.76 4.00
2128 2762 7.667635 TGAAGTTTCATAATGTATTGACACCCA 59.332 33.333 0.00 0.00 33.08 4.51
2129 2763 7.968405 GTGAAGTTTCATAATGTATTGACACCC 59.032 37.037 0.00 0.00 37.74 4.61
2130 2764 8.511321 TGTGAAGTTTCATAATGTATTGACACC 58.489 33.333 0.00 0.00 37.74 4.16
2137 2771 9.453572 ACTCACATGTGAAGTTTCATAATGTAT 57.546 29.630 27.63 9.74 41.42 2.29
2138 2772 8.846943 ACTCACATGTGAAGTTTCATAATGTA 57.153 30.769 27.63 1.53 41.42 2.29
2139 2773 7.750229 ACTCACATGTGAAGTTTCATAATGT 57.250 32.000 27.63 15.01 42.77 2.71
2140 2774 9.154847 TCTACTCACATGTGAAGTTTCATAATG 57.845 33.333 27.63 14.41 39.73 1.90
2141 2775 9.725019 TTCTACTCACATGTGAAGTTTCATAAT 57.275 29.630 27.63 7.68 39.73 1.28
2142 2776 9.725019 ATTCTACTCACATGTGAAGTTTCATAA 57.275 29.630 27.63 12.99 39.73 1.90
2143 2777 9.154847 CATTCTACTCACATGTGAAGTTTCATA 57.845 33.333 27.63 12.00 39.73 2.15
2144 2778 7.879677 TCATTCTACTCACATGTGAAGTTTCAT 59.120 33.333 27.63 13.48 39.73 2.57
2145 2779 7.216494 TCATTCTACTCACATGTGAAGTTTCA 58.784 34.615 27.63 11.90 39.39 2.69
2146 2780 7.658179 TCATTCTACTCACATGTGAAGTTTC 57.342 36.000 27.63 0.00 39.39 2.78
2147 2781 7.879677 TGATCATTCTACTCACATGTGAAGTTT 59.120 33.333 27.63 15.11 39.39 2.66
2148 2782 7.389232 TGATCATTCTACTCACATGTGAAGTT 58.611 34.615 27.63 17.36 39.39 2.66
2149 2783 6.939622 TGATCATTCTACTCACATGTGAAGT 58.060 36.000 27.63 25.77 39.39 3.01
2150 2784 7.548427 AGTTGATCATTCTACTCACATGTGAAG 59.452 37.037 27.63 22.38 39.39 3.02
2151 2785 7.389232 AGTTGATCATTCTACTCACATGTGAA 58.611 34.615 27.63 14.24 39.39 3.18
2152 2786 6.939622 AGTTGATCATTCTACTCACATGTGA 58.060 36.000 26.33 26.33 33.44 3.58
2153 2787 8.707938 TTAGTTGATCATTCTACTCACATGTG 57.292 34.615 20.18 20.18 38.59 3.21
2154 2788 7.984050 CCTTAGTTGATCATTCTACTCACATGT 59.016 37.037 0.00 0.00 38.59 3.21
2155 2789 7.984050 ACCTTAGTTGATCATTCTACTCACATG 59.016 37.037 0.00 0.00 38.59 3.21
2156 2790 8.083828 ACCTTAGTTGATCATTCTACTCACAT 57.916 34.615 0.00 0.00 38.59 3.21
2157 2791 7.482169 ACCTTAGTTGATCATTCTACTCACA 57.518 36.000 0.00 0.00 38.59 3.58
2158 2792 8.035394 TGAACCTTAGTTGATCATTCTACTCAC 58.965 37.037 0.00 0.00 38.59 3.51
2159 2793 8.134202 TGAACCTTAGTTGATCATTCTACTCA 57.866 34.615 0.00 1.74 38.59 3.41
2164 2798 7.497249 GCAGTATGAACCTTAGTTGATCATTCT 59.503 37.037 0.00 1.04 39.69 2.40
2165 2799 7.517417 CGCAGTATGAACCTTAGTTGATCATTC 60.517 40.741 0.00 0.00 39.69 2.67
2166 2800 6.258727 CGCAGTATGAACCTTAGTTGATCATT 59.741 38.462 0.00 0.00 39.69 2.57
2167 2801 5.755375 CGCAGTATGAACCTTAGTTGATCAT 59.245 40.000 0.00 0.00 39.69 2.45
2168 2802 5.105513 TCGCAGTATGAACCTTAGTTGATCA 60.106 40.000 0.00 0.00 39.69 2.92
2169 2803 5.348986 TCGCAGTATGAACCTTAGTTGATC 58.651 41.667 0.00 0.00 39.69 2.92
2170 2804 5.339008 TCGCAGTATGAACCTTAGTTGAT 57.661 39.130 0.00 0.00 39.69 2.57
2171 2805 4.794278 TCGCAGTATGAACCTTAGTTGA 57.206 40.909 0.00 0.00 39.69 3.18
2172 2806 5.856126 TTTCGCAGTATGAACCTTAGTTG 57.144 39.130 0.00 0.00 39.69 3.16
2173 2807 7.174253 TGAAATTTCGCAGTATGAACCTTAGTT 59.826 33.333 13.34 0.00 39.69 2.24
2174 2808 6.653320 TGAAATTTCGCAGTATGAACCTTAGT 59.347 34.615 13.34 0.00 39.69 2.24
2175 2809 7.064609 TCTGAAATTTCGCAGTATGAACCTTAG 59.935 37.037 13.34 0.03 39.69 2.18
2176 2810 6.876789 TCTGAAATTTCGCAGTATGAACCTTA 59.123 34.615 13.34 0.00 39.69 2.69
2177 2811 5.705441 TCTGAAATTTCGCAGTATGAACCTT 59.295 36.000 13.34 0.00 39.69 3.50
2178 2812 5.245531 TCTGAAATTTCGCAGTATGAACCT 58.754 37.500 13.34 0.00 39.69 3.50
2179 2813 5.545658 TCTGAAATTTCGCAGTATGAACC 57.454 39.130 13.34 0.00 39.69 3.62
2180 2814 8.452989 AAATTCTGAAATTTCGCAGTATGAAC 57.547 30.769 13.34 0.00 40.28 3.18
2181 2815 9.474920 AAAAATTCTGAAATTTCGCAGTATGAA 57.525 25.926 13.34 8.71 42.82 2.57
2254 2888 3.499737 GATGAACCTGGGTGCGCG 61.500 66.667 0.00 0.00 0.00 6.86
2255 2889 1.244019 AAAGATGAACCTGGGTGCGC 61.244 55.000 0.00 0.00 0.00 6.09
2256 2890 0.523072 CAAAGATGAACCTGGGTGCG 59.477 55.000 0.00 0.00 0.00 5.34
2257 2891 1.620822 ACAAAGATGAACCTGGGTGC 58.379 50.000 0.00 0.00 0.00 5.01
2258 2892 5.982890 AAATACAAAGATGAACCTGGGTG 57.017 39.130 0.00 0.00 0.00 4.61
2259 2893 5.183140 CGAAAATACAAAGATGAACCTGGGT 59.817 40.000 0.00 0.00 0.00 4.51
2260 2894 5.183140 ACGAAAATACAAAGATGAACCTGGG 59.817 40.000 0.00 0.00 0.00 4.45
2261 2895 6.072728 TGACGAAAATACAAAGATGAACCTGG 60.073 38.462 0.00 0.00 0.00 4.45
2262 2896 6.898041 TGACGAAAATACAAAGATGAACCTG 58.102 36.000 0.00 0.00 0.00 4.00
2263 2897 7.012894 TGTTGACGAAAATACAAAGATGAACCT 59.987 33.333 0.00 0.00 0.00 3.50
2264 2898 7.136119 TGTTGACGAAAATACAAAGATGAACC 58.864 34.615 0.00 0.00 0.00 3.62
2265 2899 8.728088 ATGTTGACGAAAATACAAAGATGAAC 57.272 30.769 0.00 0.00 0.00 3.18
2267 2901 9.820229 GTTATGTTGACGAAAATACAAAGATGA 57.180 29.630 0.00 0.00 0.00 2.92
2268 2902 9.825972 AGTTATGTTGACGAAAATACAAAGATG 57.174 29.630 0.00 0.00 0.00 2.90
2269 2903 9.825972 CAGTTATGTTGACGAAAATACAAAGAT 57.174 29.630 0.00 0.00 0.00 2.40
2270 2904 8.832521 ACAGTTATGTTGACGAAAATACAAAGA 58.167 29.630 0.00 0.00 35.63 2.52
2284 2918 9.559732 CCATGAGGATATTAACAGTTATGTTGA 57.440 33.333 3.95 0.00 43.20 3.18
2340 2974 6.317391 CACCCCTGAAGAAGAGTGATTTAATC 59.683 42.308 0.00 0.00 33.89 1.75
2381 3028 2.704464 TCCTGATGTGATGCCTCAAG 57.296 50.000 0.00 0.00 31.85 3.02
2383 3030 2.169978 CTCTTCCTGATGTGATGCCTCA 59.830 50.000 0.00 0.00 0.00 3.86
2391 3038 1.952367 GCCAACCCTCTTCCTGATGTG 60.952 57.143 0.00 0.00 0.00 3.21
2419 3066 4.752101 GCAATCATGTAAGCGATAGAGGTT 59.248 41.667 0.00 0.00 39.76 3.50
2465 3112 6.597672 TGCCTTACAGTTTGTCCATATAAGTG 59.402 38.462 0.00 0.00 0.00 3.16
2480 3127 1.263356 TAGCCTTCGTGCCTTACAGT 58.737 50.000 0.00 0.00 0.00 3.55
2526 3173 4.981806 TTAGGCATCCTTCCAATTTTCG 57.018 40.909 0.00 0.00 34.61 3.46


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.